diff --git a/DDLGeneratr/R/writePDF.R b/DDLGeneratr/R/writePDF.R deleted file mode 100644 index b0ee6af..0000000 --- a/DDLGeneratr/R/writePDF.R +++ /dev/null @@ -1,36 +0,0 @@ -# Copyright 2017 Observational Health Data Sciences and Informatics -# -# This file is part of DDLGeneratr -# -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at -# -# http://www.apache.org/licenses/LICENSE-2.0 -# -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. - -#' Write PDF of CDM documentation -#' -#' @param mdFilesLocation The dialect of the target database. Choices are "oracle", "postgresql", "pdw", "redshift", "impala", "netezza", "bigquery", "sql server" -#' -#' @param cdmVersion The version of the OMOP Common Data Model for which the pdf document is being written. It should be written without a decimal so v5.3 becomes v5_3 -#' -#' @export -writePDF <- function(mdFilesLocation, cdmVersion) { - -sql <- SqlRender::loadRenderTranslateSql(sqlFilename = "OMOP_CDM_PDF.sql", - packageName = "DDLGeneratr", - dbms = "sql server", - mdFilesLocation = mdFilesLocation) - -SqlRender::writeSql(sql = sql, - targetFile = "reports/OMOP_CDM_PDF_rendered.Rmd") - -rmarkdown::render(input = "reports/OMOP_CDM_PDF_rendered.Rmd", output_format = "pdf_document", output_file = paste0("OMOP_CDM_",cdmVersion,".pdf")) - -} diff --git a/DDLGeneratr/codeToRun.R b/DDLGeneratr/codeToRun.R index 9023460..6e14aeb 100644 --- a/DDLGeneratr/codeToRun.R +++ b/DDLGeneratr/codeToRun.R @@ -1,7 +1,13 @@ #This script is meant to create the OMOP Common Data Model DDLs for each dialect as well as the pdf of the documentation. -# Step 1: Update the file inst/sql/sql_server/OMOP CDM ddl.sql with the changes for the new version +# Step 1: Update the file inst/sql/sql_server/OMOP CDM ddl.sql with the changes for the new version and set the below variables + + # Step 1.1: The version of the CDM you are writing. This will be used for the name of the pdf so, for example, write v5.3 as v5_3 + cdmVersion <- "v5_3" + + # Step 1.2: The location of the wiki markdown files. The default is "../../Documentation/CommonDataModel_Wiki_Files" + mdFilesLocation <- "../../Documentation/CommonDataModel_Wiki_Files" # Step 2: Run the following code to create the DDLs for each dialect: @@ -30,4 +36,7 @@ writeConstraints("sql server") # step 5: Run the following code to create the pdf documentation. It will be written to the reports folder. -writePDF(mdFilesLocation = "../../Documentation/CommonDataModel_Wiki_Files", cdmVersion = "v5_3") +rmarkdown::render("reports/OMOP_CDM_PDF.Rmd", + output_format = "pdf_document", + output_file = paste0("OMOP_CDM_",cdmVersion,".pdf"), + params = list(mdFilesLocation = mdFilesLocation)) diff --git a/DDLGeneratr/reports/OMOP_CDM_PDF.Rmd b/DDLGeneratr/reports/OMOP_CDM_PDF.Rmd index f4ae247..9fa4f14 100644 --- a/DDLGeneratr/reports/OMOP_CDM_PDF.Rmd +++ b/DDLGeneratr/reports/OMOP_CDM_PDF.Rmd @@ -3,7 +3,7 @@ title: "OMOP Common Data Model Specifications" author: "Christian Reich, Patrick Ryan, Rimma Belenkaya, Karthik Natarajan and Clair Blacketer" date: "`r Sys.Date()`" params: - mdFilesLocation:"../../Documentation/CommonDataModel_Wiki_Files" + mdFilesLocation: "../../Documentation/CommonDataModel_Wiki_Files" output: pdf_document: number_sections: yes @@ -11,198 +11,202 @@ output: linkcolor: blue --- +```{r, echo=FALSE} +mdFilesLocation <- params$mdFilesLocation +``` + # License -```{r child = paste0(params$mdFilesLocation,'/License.md')} +```{r child = paste0(mdFilesLocation,'/License.md')} ``` # Background -```{r child = '@mdFilesLocation/Background/Background.md'} +```{r child = paste0(mdFilesLocation,'/Background/Background.md')} ``` ## The Role of the Common Data Model -```{r child = '@mdFilesLocation/Background/The-Role-of-the-Common-Data-Model.md'} +```{r child = paste0(mdFilesLocation,'/Background/The-Role-of-the-Common-Data-Model.md')} ``` ## Design Principles -```{r child = '@mdFilesLocation/Background/Design-Principles.md'} +```{r child = paste0(mdFilesLocation,'/Background/Design-Principles.md')} ``` ## Data Model Conventions -```{r child = '@mdFilesLocation/Background/Data-Model-Conventions.md'} +```{r child = paste0(mdFilesLocation,'/Background/Data-Model-Conventions.md')} ``` # Glossary of Terms -```{r child = '@mdFilesLocation/Glossary-of-Terms.md'} +```{r child = paste0(mdFilesLocation,'/Glossary-of-Terms.md')} ``` # Standardized Vocabularies -```{r child = '@mdFilesLocation/StandardizedVocabularies/Standardized-Vocabularies.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/Standardized-Vocabularies.md')} ``` ## CONCEPT -```{r child = '@mdFilesLocation/StandardizedVocabularies/CONCEPT.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/CONCEPT.md')} ``` ## VOCABULARY -```{r child = '@mdFilesLocation/StandardizedVocabularies/VOCABULARY.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/VOCABULARY.md')} ``` ## DOMAIN -```{r child = '@mdFilesLocation/StandardizedVocabularies/DOMAIN.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/DOMAIN.md')} ``` ## CONCEPT_CLASS -```{r child = '@mdFilesLocation/StandardizedVocabularies/CONCEPT_CLASS.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/CONCEPT_CLASS.md')} ``` ## CONCEPT_RELATIONSHIP -```{r child = '@mdFilesLocation/StandardizedVocabularies/CONCEPT_RELATIONSHIP.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/CONCEPT_RELATIONSHIP.md')} ``` ## RELATIONSHIP -```{r child = '@mdFilesLocation/StandardizedVocabularies/RELATIONSHIP.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/RELATIONSHIP.md')} ``` ## CONCEPT_SYNONYM -```{r child = '@mdFilesLocation/StandardizedVocabularies/CONCEPT_SYNONYM.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/CONCEPT_SYNONYM.md')} ``` ## CONCEPT_ANCESTOR -```{r child = '@mdFilesLocation/StandardizedVocabularies/CONCEPT_ANCESTOR.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/CONCEPT_ANCESTOR.md')} ``` ## SOURCE_TO_CONCEPT_MAP -```{r child = '@mdFilesLocation/StandardizedVocabularies/SOURCE_TO_CONCEPT_MAP.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/SOURCE_TO_CONCEPT_MAP.md')} ``` ## DRUG_STRENGTH -```{r child = '@mdFilesLocation/StandardizedVocabularies/DRUG_STRENGTH.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/DRUG_STRENGTH.md')} ``` ## COHORT_DEFINITION -```{r child = '@mdFilesLocation/StandardizedVocabularies/COHORT_DEFINITION.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/COHORT_DEFINITION.md')} ``` ## ATTRIBUTE_DEFINITION -```{r child = '@mdFilesLocation/StandardizedVocabularies/ATTRIBUTE_DEFINITION.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedVocabularies/ATTRIBUTE_DEFINITION.md')} ``` # Standardized Metadata -```{r child = '@mdFilesLocation/StandardizedMetadata/Standardized-Metadata.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedMetadata/Standardized-Metadata.md')} ``` ## CDM_SOURCE -```{r child = '@mdFilesLocation/StandardizedMetadata/CDM_SOURCE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedMetadata/CDM_SOURCE.md')} ``` # Standardized Clinical Data Tables -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/Standardized-clinical-Data-Tables.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/Standardized-clinical-Data-Tables.md')} ``` ## PERSON -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/PERSON.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/PERSON.md')} ``` ## OBSERVATION_PERIOD -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/OBSERVATION_PERIOD.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/OBSERVATION_PERIOD.md')} ``` ## SPECIMEN -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/SPECIMEN.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/SPECIMEN.md')} ``` ## DEATH -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/DEATH.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/DEATH.md')} ``` ## VISIT_OCCURRENCE -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/VISIT_OCCURRENCE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/VISIT_OCCURRENCE.md')} ``` ## PROCEDURE_OCCURRENCE -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/PROCEDURE_OCCURRENCE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/PROCEDURE_OCCURRENCE.md')} ``` ## DRUG_EXPOSURE -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/DRUG_EXPOSURE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/DRUG_EXPOSURE.md')} ``` ## DEVICE_EXPOSURE -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/DEVICE_EXPOSURE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/DEVICE_EXPOSURE.md')} ``` ## CONDITION_OCCURRENCE -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/CONDITION_OCCURRENCE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/CONDITION_OCCURRENCE.md')} ``` ## MEASUREMENT -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/MEASUREMENT.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/MEASUREMENT.md')} ``` ## NOTE -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/NOTE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/NOTE.md')} ``` ## NOTE_NLP -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/NOTE_NLP.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/NOTE_NLP.md')} ``` ## OBSERVATION -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/OBSERVATION.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/OBSERVATION.md')} ``` ## FACT_RELATIONSHIP -```{r child = '@mdFilesLocation/StandardizedclinicalDataTables/FACT_RELATIONSHIP.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedclinicalDataTables/FACT_RELATIONSHIP.md')} ``` # Standardized Health System Data Tables -```{r child = '@mdFilesLocation/StandardizedHealthSystemDataTables/Standardized-Health-System-Data-Tables.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthSystemDataTables/Standardized-Health-System-Data-Tables.md')} ``` ## LOCATION -```{r child = '@mdFilesLocation/StandardizedHealthSystemDataTables/LOCATION.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthSystemDataTables/LOCATION.md')} ``` ## CARE_SITE -```{r child = '@mdFilesLocation/StandardizedHealthSystemDataTables/CARE_SITE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthSystemDataTables/CARE_SITE.md')} ``` ## PROVIDER -```{r child = '@mdFilesLocation/StandardizedHealthSystemDataTables/PROVIDER.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthSystemDataTables/PROVIDER.md')} ``` # Standardized Health Economics Data Tables -```{r child = '@mdFilesLocation/StandardizedHealthEconomicsDataTables/Standardized-Health-Economics-Data-Tables.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthEconomicsDataTables/Standardized-Health-Economics-Data-Tables.md')} ``` ## PAYER_PLAN_PERIOD -```{r child = '@mdFilesLocation/StandardizedHealthEconomicsDataTables/PAYER_PLAN_PERIOD.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthEconomicsDataTables/PAYER_PLAN_PERIOD.md')} ``` ## COST -```{r child = '@mdFilesLocation/StandardizedHealthEconomicsDataTables/COST.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedHealthEconomicsDataTables/COST.md')} ``` # Standardized Derived Elements -```{r child = '@mdFilesLocation/StandardizedDerivedElements/Standardized-Derived-Elements.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedDerivedElements/Standardized-Derived-Elements.md')} ``` ## COHORT -```{r child = '@mdFilesLocation/StandardizedDerivedElements/COHORT.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedDerivedElements/COHORT.md')} ``` ## COHORT_ATTRIBUTE -```{r child = '@mdFilesLocation/StandardizedDerivedElements/COHORT_ATTRIBUTE.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedDerivedElements/COHORT_ATTRIBUTE.md')} ``` ## DRUG_ERA -```{r child = '@mdFilesLocation/StandardizedDerivedElements/DRUG_ERA.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedDerivedElements/DRUG_ERA.md')} ``` ## DOSE_ERA -```{r child = '@mdFilesLocation/StandardizedDerivedElements/DOSE_ERA.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedDerivedElements/DOSE_ERA.md')} ``` ## CONDITION_ERA -```{r child = '@mdFilesLocation/StandardizedDerivedElements/CONDITION_ERA.md'} +```{r child = paste0(mdFilesLocation,'/StandardizedDerivedElements/CONDITION_ERA.md')} ``` diff --git a/DDLGeneratr/reports/OMOP_CDM_PDF_rendered.Rmd b/DDLGeneratr/reports/OMOP_CDM_PDF_rendered.Rmd deleted file mode 100644 index 3654708..0000000 --- a/DDLGeneratr/reports/OMOP_CDM_PDF_rendered.Rmd +++ /dev/null @@ -1,207 +0,0 @@ ---- -title: "OMOP Common Data Model Specifications" -author: "Christian Reich, Patrick Ryan, Rimma Belenkaya, Karthik Natarajan and Clair Blacketer" -date: "`r Sys.Date()`" -output: - pdf_document: - number_sections: yes - toc: yes -linkcolor: blue ---- - -# License - -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/License.md'} -``` - -# Background -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/Background/Background.md'} -``` - -## The Role of the Common Data Model -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/Background/The-Role-of-the-Common-Data-Model.md'} -``` - -## Design Principles -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/Background/Design-Principles.md'} -``` - -## Data Model Conventions -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/Background/Data-Model-Conventions.md'} -``` - -# Glossary of Terms -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/Glossary-of-Terms.md'} -``` - -# Standardized Vocabularies -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/Standardized-Vocabularies.md'} -``` - -## CONCEPT -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/CONCEPT.md'} -``` - -## VOCABULARY -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/VOCABULARY.md'} -``` - -## DOMAIN -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/DOMAIN.md'} -``` - -## CONCEPT_CLASS -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/CONCEPT_CLASS.md'} -``` - -## CONCEPT_RELATIONSHIP -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/CONCEPT_RELATIONSHIP.md'} -``` - -## RELATIONSHIP -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/RELATIONSHIP.md'} -``` - -## CONCEPT_SYNONYM -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/CONCEPT_SYNONYM.md'} -``` - -## CONCEPT_ANCESTOR -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/CONCEPT_ANCESTOR.md'} -``` - -## SOURCE_TO_CONCEPT_MAP -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/SOURCE_TO_CONCEPT_MAP.md'} -``` - -## DRUG_STRENGTH -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/DRUG_STRENGTH.md'} -``` - -## COHORT_DEFINITION -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/COHORT_DEFINITION.md'} -``` - -## ATTRIBUTE_DEFINITION -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedVocabularies/ATTRIBUTE_DEFINITION.md'} -``` - -# Standardized Metadata -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedMetadata/Standardized-Metadata.md'} -``` - -## CDM_SOURCE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedMetadata/CDM_SOURCE.md'} -``` - -# Standardized Clinical Data Tables -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/Standardized-clinical-Data-Tables.md'} -``` - -## PERSON -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/PERSON.md'} -``` - -## OBSERVATION_PERIOD -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/OBSERVATION_PERIOD.md'} -``` - -## SPECIMEN -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/SPECIMEN.md'} -``` - -## DEATH -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/DEATH.md'} -``` - -## VISIT_OCCURRENCE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/VISIT_OCCURRENCE.md'} -``` - -## PROCEDURE_OCCURRENCE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/PROCEDURE_OCCURRENCE.md'} -``` - -## DRUG_EXPOSURE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/DRUG_EXPOSURE.md'} -``` - -## DEVICE_EXPOSURE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/DEVICE_EXPOSURE.md'} -``` - -## CONDITION_OCCURRENCE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/CONDITION_OCCURRENCE.md'} -``` - -## MEASUREMENT -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/MEASUREMENT.md'} -``` - -## NOTE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/NOTE.md'} -``` - -## NOTE_NLP -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/NOTE_NLP.md'} -``` - -## OBSERVATION -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/OBSERVATION.md'} -``` - -## FACT_RELATIONSHIP -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedclinicalDataTables/FACT_RELATIONSHIP.md'} -``` - -# Standardized Health System Data Tables -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthSystemDataTables/Standardized-Health-System-Data-Tables.md'} -``` - -## LOCATION -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthSystemDataTables/LOCATION.md'} -``` - -## CARE_SITE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthSystemDataTables/CARE_SITE.md'} -``` - -## PROVIDER -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthSystemDataTables/PROVIDER.md'} -``` - -# Standardized Health Economics Data Tables -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthEconomicsDataTables/Standardized-Health-Economics-Data-Tables.md'} -``` - -## PAYER_PLAN_PERIOD -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthEconomicsDataTables/PAYER_PLAN_PERIOD.md'} -``` - -## COST -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedHealthEconomicsDataTables/COST.md'} -``` - -# Standardized Derived Elements -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedDerivedElements/Standardized-Derived-Elements.md'} -``` - -## COHORT -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedDerivedElements/COHORT.md'} -``` - -## COHORT_ATTRIBUTE -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedDerivedElements/COHORT_ATTRIBUTE.md'} -``` - -## DRUG_ERA -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedDerivedElements/DRUG_ERA.md'} -``` - -## DOSE_ERA -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedDerivedElements/DOSE_ERA.md'} -``` - -## CONDITION_ERA -```{r child = '../../Documentation/CommonDataModel_Wiki_Files/StandardizedDerivedElements/CONDITION_ERA.md'} -``` diff --git a/DDLGeneratr/reports/OMOP_CDM_v5_3.pdf b/DDLGeneratr/reports/OMOP_CDM_v5_3.pdf index 6e9bfdc..7ef89ec 100644 --- a/DDLGeneratr/reports/OMOP_CDM_v5_3.pdf +++ b/DDLGeneratr/reports/OMOP_CDM_v5_3.pdf @@ -304,12 +304,11 @@ endobj >> stream x[]SH}_cj`x]R@fRLDeT*oCHb@ǹ{PԠv ǃӗCdkcEDm@nkѹ} gby֟wty2{N&ߐIJe/h6c8LaaKӑmؘќE\q6 舟$\}aZm<\f e &6.nu/VWi@L_*gi> @@ -10452,7 +10451,7 @@ trailer << /Size 878 /Root 876 0 R /Info 877 0 R -/ID [<568658FF67029440DF971A075757FBD0> <568658FF67029440DF971A075757FBD0>] >> +/ID [<14B55B680B9D9C412E825A7F09CDF426> <14B55B680B9D9C412E825A7F09CDF426>] >> startxref 1066784 %%EOF